DreINT0025573 @ danRer10
Intron Retention
Gene
ENSDARG00000004880 | acsm3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:ZFIN;Acc:ZDB-GENE-080220-22]
Coordinates
chr2:44880559-44881696:-
Coord C1 exon
chr2:44881617-44881696
Coord A exon
chr2:44880683-44881616
Coord C2 exon
chr2:44880559-44880682
Length
934 bp
Sequences
Splice sites
5' ss Seq
TAAGTATGG
5' ss Score
1.55
3' ss Seq
ATTTTTGTGATTTTTACCAGGTA
3' ss Score
8.99
Exon sequences
Seq C1 exon
ACTCTGAGCCACTATCCCATCACCACCTTCTGCACAGCACCGACCGCCTATCGAATGCTTGTACAGGATGACTTGTCTAA
Seq A exon
GTATGGACTGTCTCTAATGTGATGCGACTAAAATTCACATTAACTCAAATTAACTCTAAATTTACTACCTATTGTCCCGCCTTTTTCCTATAGCGTAATGCATTTAAGGTTATATGTGGCACTTTCAATTTTGGATTAATGCCCTTAAAATGTTAATAAATATTATATTATATATTATATTGTATAATAATATTATAGATATTTTCATAGTAATATTTAAAGTCCAAATGAACCGAAAGTTGCTGAGATTTTTATGTCAGTATGTTGATGTACTTCCAACTGAAACGGAATACGAGTAGGAGGCGGTGCATCATTGCACCCTCTTTGACTGAAGATTATCAAAACAAACATCGTTTTATTTGATTAACTTGCACAGATGAATTGTCCACCTGAAGGATAACAATATGCGCTAGCAAAATAGCCATTGTAAATTTTGATTTTCCACAGACATTACCGCATCCATATATTGCTGCAGAAATAATTAAGATTTTAAGGCTATTCGTGATATGCTATAAGTAGTTTGTTAATGCCTTCAAACTTTTACTTTTGGGCAGCACTGTGTCTCAGTGGTTAGCACTGTCACCTCACAGCAAGAAGGTCGCTGGTTCAAGTCCCGGCTGAGCCAGTTGGCATTTCTGACGGTCACAGCTTCCGGTTCATGCAGACTTTAAATGGTTAAAAAAAAATGCAGGTTCATTGTATCCTAAATACCTGAAAGTACAATCTGTGACAATCAGCCAAATGCAAAGCTACTGCCATCATTTATGCTAAGCGTCATCATAGGGTATAGAAGAATAATAGATCAATTTTATTATTTCTCTGTTTTATGAAGGTGCAATTTTTGAACAGAATTTGTAATCACATGCTTGCACATCCTGAACTGGATCAGCCCAGCTTATCTTAATCTAATCCTCATTTTTGTGATTTTTACCAG
Seq C2 exon
GTATAAATTCCAGGCTCTTGAACACTGTCTGTGTGCCGGAGAGCCCATTAACCCTGAGGTCATGTGCAAATGGAAAGAGCTCACTGGACTGGACATCTACGAGGGATACGGACAGACTGAGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004880:ENSDART00000041806:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(6.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(9.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGAGCCACTATCCCATCACC
R:
TCAGTCTGTCCGTATCCCTCG
Band lengths:
198-1132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]